Additional data file 2.

A. Data matrix of miRNA expression values (schematic). The 333 rows and 168 columns correspond to probes and samples respectively. Expression values for each sample were obtained from hybridizations to four distinct bead sets (with approximately 90 probes each), carried out in separate wells of 96-well plates. Hybridizations were performed on eight plates, using two plates for each bead set. The allocation of samples between the two plates for a given bead set was kept consistent for all four bead sets. Thus both probes and samples could be ordered according to the plate of origin, partitioning the data matrix into eight blocks corresponding to measurements from distinct plates. Expression values for a representative well on plate 1 for beadset 1 are indicated in grey. B. Heatmap of unnormalized log2 MFI values for all miRNA probes and all samples. Probes were median centred prior to plotting. C. Heatmap of differences between the probe median for the randomized samples on a given plate and the probe median for all samples on both plates.

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Blenkiron et al. Genome Biology 2007 8:R214   doi:10.1186/gb-2007-8-10-r214